Inputs and parameters

Parameters

Run functional and taxonomic annotations Yes
Run MEGAN Yes
Run annotations with COGs Yes
Build submission files Yes
Run blast against your own fasta file No

Annotation

Result table

Prokka Fasta files	Prokka annotation	Diamond fosmid against NR	Diamond fosmid against Uniprot	Diamond ORFs against NR	Diamond ORFs against Uniprot	COGs annotation
DNA - PROT	GFF	TSV	TSV	TSV	TSV	RPSBLAST

Result table by fosmid

Sample	Length	GC%	A	T	G	C	Others	Prokka	GenBank	Annotated ORFs against Uniprot		Annotated ORFs against NR		MEGAN	COGs
bioindent1.C1a	38297	44.24	8711	12643	7822	9121	0	Fasta	GBK	5 / 41		17 / 41			Function unknown
bioindent2.C1	37094	37.26	11696	11578	7119	6701	0	Fasta	GBK	15 / 44		36 / 44			Amino acid transport and metabolism

ORF	HSP	Max coverage	Best HSP (max. of %iden * coverage)
ORF	HSP	Max coverage	%iden.	Coverage	Species
ORF2	7	98.5%	35.1	93.5%	Treponema azotonutricium
ORF4	211	98.0%	28.5	92.2%	Thermodesulfitimonas autotrophica
ORF8	1000	99.6%	45.3	99.2%	Spirochaeta lutea
ORF14	1000	71.2%	47.7	60.5%	Treponema maltophilum
ORF18	1000	99.2%	49.2	96.1%	Bacteroidales bacterium Barb7
ORF21	122	99.1%	65.7	99.1%	Candidatus Termititenax aidoneus
ORF24	17	98.1%	39.9	98.1%	Treponema azotonutricium
ORF26	1	51.6%	36.0	51.6%	Proteobacteria bacterium CAG:495
ORF28	193	77.5%	45.8	77.2%	Treponema primitia
ORF29	816	99.6%	58.5	99.6%	Treponema primitia
ORF30	437	99.8%	62.1	99.8%	Treponema primitia
ORF32	44	97.5%	54.9	97.5%	Treponema primitia
ORF35	1000	99.3%	42.1	98.2%	Clostridium sp. AF18-27
ORF36	3	76.7%	25.6	76.7%	Ruminococcaceae bacterium YRB3002
ORF37	1	89.5%	37.4	89.5%	Gottschalkiaceae bacterium
ORF39	1000	98.0%	31.8	98.0%	uncultured bacterium
ORF40	3	88.4%	37.6	88.4%	Treponema primitia

ORF	HSP	Max coverage	Best HSP (max. of %iden * coverage)
ORF	HSP	Max coverage	%iden.	Coverage	Species
ORF1	1000	99.3%	78.1	82.8%	uncultured bacterium
ORF2	1000	99.5%	54.7	98.1%	Bifidobacterium stellenboschense
ORF3	1000	99.5%	63.6	95.8%	Kineothrix alysoides
ORF4	1000	99.6%	66.3	97.8%	Kineothrix alysoides
ORF5	988	99.8%	34.2	99.0%	Clostridiales bacterium Marseille-P2846
ORF6	916	99.4%	73.9	97.0%	Treponema primitia
ORF7	1000	99.6%	49.4	96.3%	Treponema caldarium
ORF8	3	96.6%	27.0	96.6%	Treponema azotonutricium
ORF9	1000	99.6%	71.9	96.1%	Deltaproteobacteria bacterium
ORF10	1000	99.1%	66.1	99.1%	Treponema primitia
ORF11	79	95.8%	63.4	86.3%	Treponema primitia
ORF12	1000	94.9%	54.9	78.8%	Methanobrevibacter gottschalkii
ORF14	108	95.2%	46.7	91.7%	Methyloversatilis discipulorum
ORF15	9	59.4%	36.4	53.8%	Geobacillus sp. 12AMOR1
ORF17	8	96.2%	33.8	93.9%	Candidatus Micrarchaeota archaeon
ORF18	1	51.0%	34.2	51.0%	Flavobacteriales bacterium CG_4_10_14_0_8_um_filter_32_5
ORF19	96	99.4%	50.5	98.7%	Riemerella anatipestifer
ORF20	13	99.5%	46.6	99.5%	Treponema primitia
ORF22	4	99.4%	36.2	99.4%	Treponema putidum
ORF24	1000	87.7%	52.4	76.1%	Algoriphagus yeomjeoni
ORF26	5	79.5%	40.6	79.5%	Flavobacterium aciduliphilum
ORF28	22	94.6%	66.3	93.5%	Treponema pedis
ORF30	10	66.7%	71.7	66.7%	Treponema pedis
ORF31	1000	99.6%	83.0	99.3%	Treponema primitia
ORF32	1000	95.4%	73.4	94.4%	Treponema primitia
ORF33	1000	99.5%	75.8	98.1%	Treponema primitia
ORF34	1000	99.6%	82.0	99.6%	Treponema primitia
ORF36	197	97.9%	52.9	96.5%	Desulfosporosinus sp. BG
ORF37	1000	99.9%	54.1	99.8%	Desulfosporosinus sp. BG
ORF38	52	99.5%	67.8	94.5%	Paenibacillus pasadenensis
ORF39	147	99.8%	57.6	99.8%	Desulfosporosinus sp. BG
ORF40	1000	99.6%	70.2	99.2%	uncultured Flavonifractor sp.
ORF41	1000	99.5%	73.8	99.1%	Ruminococcus sp. CAG:724
ORF42	1000	99.3%	54.6	96.6%	Ruminococcus sp. CAG:724
ORF43	1000	98.9%	60.2	98.4%	Treponema primitia

ORF	HSP	Max coverage	Best HSP (max. of %iden * coverage)
ORF	HSP	Max coverage	%iden.	Coverage	Species
ORF4	2	62.7%	27.5	62.7%	Escherichia coli
ORF8	3	99.2%	42.0	99.2%	Treponema pallidum
ORF14	528	67.5%	39.2	59.8%	Rhodopseudomonas palustris
ORF35	1	81.1%	27.1	81.1%	Staphylococcus xylosus
ORF39	6	61.8%	37.8	57.9%	Clostridium cellulovorans

ORF	HSP	Max coverage	Best HSP (max. of %iden * coverage)
ORF	HSP	Max coverage	%iden.	Coverage	Species
ORF1	12	99.3%	40.1	99.3%	Clostridium thermocellum
ORF2	1	84.7%	27.2	84.7%	Escherichia coli
ORF3	184	99.5%	62.6	94.4%	Clostridium botulinum
ORF4	228	99.6%	60.2	96.7%	Clostridium cellulolyticum
ORF7	65	99.6%	36.4	98.8%	Bradyrhizobium sp
ORF9	1	96.9%	38.2	96.9%	Escherichia coli
ORF10	3	96.6%	32.1	96.6%	Mycobacterium bovis
ORF12	19	81.2%	39.9	81.2%	Bacillus subtilis
ORF31	31	98.6%	37.2	98.2%	Thermodesulfovibrio yellowstonii
ORF32	360	94.4%	52.0	92.6%	Lactobacillus casei
ORF33	217	99.5%	44.7	98.6%	Moorella thermoacetica
ORF34	683	99.6%	56.3	98.5%	Marinobacter hydrocarbonoclasticus
ORF40	1000	99.6%	51.8	98.1%	Bacillus subtilis
ORF41	9	95.4%	38.1	95.4%	Bacillus subtilis
ORF42	2	94.4%	31.4	94.4%	Bacillus subtilis

COGs category	ORFs	COGs (Best hit)
Function unknown	ORF6	COG4642, Uncharacterized protein conserved in bacteria
	ORF7	COG4642, Uncharacterized protein conserved in bacteria
	ORF9	COG4642, Uncharacterized protein conserved in bacteria
	ORF10	COG4642, Uncharacterized protein conserved in bacteria
	ORF12	COG4642, Uncharacterized protein conserved in bacteria
	ORF22	COG4642, Uncharacterized protein conserved in bacteria
	ORF27	COG4642, Uncharacterized protein conserved in bacteria
General function prediction only	ORF13	COG0457, NrfG, FOG: TPR repeat
	ORF26	COG0790, FOG: TPR repeat, SEL1 subfamily
	ORF29	COG4245, TerY, Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain
	ORF30	COG0515, SPS1, Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]
	ORF31	COG0790, FOG: TPR repeat, SEL1 subfamily
Carbohydrate transport and metabolism	ORF14	COG3839, MalK, ABC-type sugar transport systems, ATPase components
Carbohydrate transport and metabolism	ORF39	COG2730, BglC, Endoglucanase
Cell motility and secretion	ORF4	COG1536, FliG, Flagellar motor switch protein
Cell motility and secretion	ORF8	COG1868, FliM, Flagellar motor switch protein
Signal transduction mechanisms	ORF18	COG3744, PIN domain nuclease, a component of toxin-antitoxin system (PIN domain)
Signal transduction mechanisms	ORF21	COG2337, MazF, Growth inhibitor
Cell envelope biogenesis, outer membrane	ORF28	COG3064, TolA, Membrane protein involved in colicin uptake
Posttranslational modification, protein turnover, chaperones	ORF23	COG0484, DnaJ, DnaJ-class molecular chaperone with C-terminal Zn finger domain
Transcription	ORF35	COG2207, AraC, AraC-type DNA-binding domain-containing proteins

COGs category	ORFs	COGs (Best hit)
Amino acid transport and metabolism	ORF31	COG0040, HisG, ATP phosphoribosyltransferase
	ORF32	COG0131, HisB, Imidazoleglycerol-phosphate dehydratase
	ORF33	COG0118, HisH, Glutamine amidotransferase
	ORF34	COG0107, HisF, Imidazoleglycerol-phosphate synthase
	ORF40	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component
	ORF41	COG0765, HisM, ABC-type amino acid transport system, permease component
	ORF42	COG0834, HisJ, ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]
General function prediction only	ORF2	COG0637, Predicted phosphatase/phosphohexomutase
	ORF5	COG4552, Eis, Predicted acetyltransferase involved in intracellular survival and related acetyltransferases
	ORF9	COG4804, Predicted nuclease of restriction endonuclease-like fold
	ORF24	COG4551, Predicted protein tyrosine phosphatase
	ORF27	COG0666, Arp, FOG: Ankyrin repeat
Function unknown	ORF15	COG3680, Uncharacterized protein conserved in bacteria
Function unknown	ORF28	COG3514, Uncharacterized protein conserved in bacteria
Transcription	ORF6	COG1329, Transcriptional regulators, similar to M. xanthus CarD
Transcription	ORF43	COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog
Coenzyme metabolism	ORF3	COG0352, ThiE, Thiamine monophosphate synthase
Coenzyme metabolism	ORF4	COG2145, ThiM, Hydroxyethylthiazole kinase, sugar kinase family
Posttranslational modification, protein turnover, chaperones	ORF12	COG0464, SpoVK, ATPases of the AAA+ class
Cell division and chromosome partitioning	ORF37	COG1196, Smc, Chromosome segregation ATPases
Lipid metabolism	ORF7	COG1211, IspD, 4-diphosphocytidyl-2-methyl-D-erithritol synthase
Carbohydrate transport and metabolism	ORF1	COG2730, BglC, Endoglucanase
Signal transduction mechanisms	ORF10	COG2337, MazF, Growth inhibitor

Inputs and parameters

Parameters

Annotation

Result table

Result table by fosmid

Fosmid browser